Pranav Ballaney pushed to branch master at Debian Med / gff2aplot
Commits: ad844bca by Pranav Ballaney at 2020-06-14T11:55:03+05:30 Replace tabs in gff files with spaces - - - - - 3 changed files: - debian/changelog - + debian/patches/fix_gff_comments.patch - debian/patches/series Changes: ===================================== debian/changelog ===================================== @@ -1,3 +1,9 @@ +gff2aplot (2.0-13) UNRELEASED; urgency=medium + + * Replace tabs in gff files with spaces (Closes: #962553) + + -- Pranav Ballaney <[email protected]> Sun, 14 Jun 2020 11:51:26 +0530 + gff2aplot (2.0-12) unstable; urgency=medium * Nelson A. de Oliveira retired from Debian (thanks for your previous ===================================== debian/patches/fix_gff_comments.patch ===================================== @@ -0,0 +1,33 @@ +Description: Replace tabs in gff files with spaces + GFFparsers are supposed to ignore all the text in lines that start with # but + for some reason, gffread doesn't like tabs in comments. + The number of tabs after which gffread complains seems to be related to the + following line, but since this is just a comment anyway, replacing tabs with + spaces seems like an easier fix. +Author: Pranav Ballaney +Bug-Debian: #962553 +Last-Update: 2020-06-14 +--- +This patch header follows DEP-3: http://dep.debian.net/deps/dep3/ +--- a/examples/mhcregion/hs-mm.gff ++++ b/examples/mhcregion/hs-mm.gff +@@ -3,7 +3,7 @@ + ##date Jun/03/2003 15:19:51 + ## + ##/home/ug/jabril/development/softjabril/gfftools/gff2aplot/bin/ali2gff -x X87344 -y AF100956+AF027865 hs-mm.sim +-#name1:name2 source feature beg1:beg2 end1:end2 score strand frame group comment ++#name1:name2 source feature beg1:beg2 end1:end2 score strand frame group comment + X87344:AF100956+AF027865 sim96_LIN seqbounds 1:1 32000:35000 . . . + X87344:AF100956+AF027865 sim96_LIN alignment 863:804 19762:20115 18340.000 +:+ .:. + X87344:AF100956+AF027865 sim96_LIN fragment 863:804 890:831 0.790 +:+ .:. ## cumulative nmp: 0.001 +--- a/examples/mhcregion/hs-mm.sim.gff ++++ b/examples/mhcregion/hs-mm.sim.gff +@@ -3,7 +3,7 @@ + ##date Jun/03/2003 16:41:22 + ## + ## ali2gff -x X87344 -y AF100956+AF027865 hs-mm.sim +-#name1:name2 source feature beg1:beg2 end1:end2 score strand frame group comment ++#name1:name2 source feature beg1:beg2 end1:end2 score strand frame group comment + X87344:AF100956+AF027865 sim96_LIN seqbounds 1:1 32000:35000 . . . + X87344:AF100956+AF027865 sim96_LIN alignment 863:804 19762:20115 18340.000 +:+ .:. + X87344:AF100956+AF027865 sim96_LIN fragment 863:804 890:831 0.790 +:+ .:. ## cumulative nmp: 0.001 ===================================== debian/patches/series ===================================== @@ -8,3 +8,4 @@ perl_5.28.patch fix_install_ali2gff.patch enhance_sprintf_buffer.patch fix_README_used_for_test.patch +fix_gff_comments.patch View it on GitLab: https://salsa.debian.org/med-team/gff2aplot/-/commit/ad844bca4bb553cd49c1af15e6629360f508f50d -- View it on GitLab: https://salsa.debian.org/med-team/gff2aplot/-/commit/ad844bca4bb553cd49c1af15e6629360f508f50d You're receiving this email because of your account on salsa.debian.org.
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